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Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV)
Thesis (PhD)--University of Pretoria, 2019.
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| Format: | Thesis |
| Language: | English |
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University of Pretoria
2019
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| _version_ | 1867613710830272512 |
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| access_status_str | Open Access |
| author2 | Berger, David Kenneth |
| author_browse | Berger, David Kenneth |
| author_facet | Berger, David Kenneth |
| collection | Thesis |
| dc_rights_str_mv | © 2019 University of Pretoria. All rights reserved. The copyright in this work vests in the University of Pretoria. No part of this work may be reproduced or transmitted in any form or by any means, without the prior written permission of the University of Pretoria. |
| description | Thesis (PhD)--University of Pretoria, 2019. |
| format | Thesis |
| id | oai:repository.up.ac.za:2263/72121 |
| institution | University of Pretoria (South Africa) |
| language | English |
| last_indexed | 2026-06-10T12:40:28.830Z |
| license_str | Other — see source repository |
| provenance_str_mv | Harvested via OAI-PMH from UPSpace — University of Pretoria Institutional Repository |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| publisher | University of Pretoria |
| publisherStr | University of Pretoria |
| record_format | dspace |
| source_str | UPSpace — University of Pretoria Institutional Repository |
| spelling | oai:repository.up.ac.za:2263/72121 Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) Berger, David Kenneth amuget@gmail.com Myburg, Alexander Andrew Ferguson, Morag E. Amuge, Teddy UCTD Plant Science Cassava (Manihot esculenta) Ugandan cassava brown streak virus (UCBSV) Transcriptome analysis Viral infection Plant–virus interactions Natural and agricultural sciences theses SDG-02 Natural and agricultural sciences theses SDG-09 Natural and agricultural sciences theses SDG-15 Thesis (PhD)--University of Pretoria, 2019. Cassava is staple to millions in Africa, yet cassava brown streak disease (CBSD) greatly threatens cassava production. This study reports the mechanism of cassava’s resistance to CBSD using Ugandan cassava brown streak virus (UCBSV), one of the two CBSD-causal virus species. In a green house, five varieties: Albert, Kiroba, Mkombozi, Namikonga and NDL06/132 were analysed for response to UCBSV at 20 time points. In the first experiment, Albert and Namikonga were compared. In the second experiment, all five varieties were studied. Plants were phentyped for foliar and root symptoms of CBSD, virus titre was measured using qRT-PCR while RNAseq and QuantStudio were used to determine gene expression. Virus infected plants of susceptible variety (Albert) developed clear leaf symptoms and necrotic storage roots. UCBSV-infected plants of Namikonga (resistant) showed minimal leaf symptoms and storage roots were non-necrotic. UCBSV titre was highest in susceptible variety (Albert), and very low in the resistant variety (Namikonga). More genes were differentially expressed in Namikonga (10,028) compared to Albert (688). In Namikonga, highest expression was recorded at 2 dag and 5 dag, when only two genes were differentially expressed in Albert. GO terms for phosphorelay signal transduction, ribosome and elongation factors were enriched in Namikonga and none in Albert. In another experiment, UCBSV-infected storage roots from Kiroba were non-necrotic. Defence genes identified in Kiroba were similar to Namikonga’s, except that in Kiroba, genes were highly expressed at 1 dag and 51 dag. One storage root of Mkombozi developed a necrotic spot. Mkombozi had no distinct pattern of defence-gene expression as seen in Kiroba and Namikonga. Varieties NDL06/132 and Albert were susceptible, and showed limited numbers of differentially expressed genes. Therefore, Kiroba and Namikonga are resistant to CBSD. The resistance mechanism involves up regulation of known defence proteins, and restricted multiplication of UCBSV in infected plants. Bill and Melinda Gates Foundation & University of Pretoria bs2026 Plant Science PhD Unrestricted SDG-02: Zero hunger SDG-09: Industry, innovation and infrastructure SDG-15: Life on land 2019-11-04T09:58:48Z 2019-11-04T09:58:48Z 2019-09-05 2019 Thesis Amuge, T 2019, Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV), PhD Thesis, University of Pretoria, Pretoria, viewed yymmdd <http://hdl.handle.net/2263/72121> A2020 http://hdl.handle.net/2263/72121 en © 2019 University of Pretoria. All rights reserved. The copyright in this work vests in the University of Pretoria. No part of this work may be reproduced or transmitted in any form or by any means, without the prior written permission of the University of Pretoria. application/pdf University of Pretoria |
| spellingShingle | UCTD Plant Science Cassava (Manihot esculenta) Ugandan cassava brown streak virus (UCBSV) Transcriptome analysis Viral infection Plant–virus interactions Natural and agricultural sciences theses SDG-02 Natural and agricultural sciences theses SDG-09 Natural and agricultural sciences theses SDG-15 Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) |
| title | Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) |
| title_full | Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) |
| title_fullStr | Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) |
| title_full_unstemmed | Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) |
| title_short | Genome-wide transcriptome analysis of cassava challenged with Ugandan cassava brown streak virus (UCBSV) |
| title_sort | genome wide transcriptome analysis of cassava challenged with ugandan cassava brown streak virus ucbsv |
| topic | UCTD Plant Science Cassava (Manihot esculenta) Ugandan cassava brown streak virus (UCBSV) Transcriptome analysis Viral infection Plant–virus interactions Natural and agricultural sciences theses SDG-02 Natural and agricultural sciences theses SDG-09 Natural and agricultural sciences theses SDG-15 |
| url | http://hdl.handle.net/2263/72121 |